Sequence
atgc intronic sequence ATGC exonic sequenceGTAATTATCGATATGAATATGCCGATGCAGCCTTTAAGGAGGCCTATAACTGCTGATTCTGCTCTTATGAACCCAAACTCGAGGATCCTTGCCTTAAAAGgtattacactgtttccttcgatcgcattatcacttataacacccataagattctccttttgaagtgtatgatcagttataagacccataagtggttccta...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G11130.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA18G02960.1 (Glycine max), 5'ss of exon 2
GTAATTATCGATATGAATATGCCGATGCAGCCTTTAAGGAGGCCTATAACTGCTGATTCTGCTCTTATGAACCCAAACTCGAGGATCCTTGCCTTAAAAGgtattacactgtttccttcgat-cgcattatca-cttataacacccataagattctccttttgaagtgtatgatcagttataagacccataagtggttccta
|| || || |||||||| ||||||| |||||||| ||||||||||| || || ||||| ||||||||||| ||||| || || |||||||| || |||||| ||| || | || || | | || | ||| | || | | || | ||| | ||| || | | | |||
GTTATCATTGATATGAACATGCCGAATCAGCCTTTGAGGAGGCCTATTACGGCAGATTCCGCTCTTATGAATCCAAATTCCAGAATCCTTGCTTTGAAAGgttggctactattccgttgtattcttctcatgaacttgtgacttgtgtttgtggctagtaatgatgatgtggatttgtggataatataactaccggtatt--
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G42560.1 (Glycine max), 5'ss of exon 2
GTAATTATCGATATGAATATGCCGATGCAGCCTTTAAGGAGGCCTATAACTGCTGATTCTGCTCTTATGAACCCAAACTCGAGGATCCTTGCCTTAAAAGgtattacactgtttc-----cttcgatcgcatt-atcacttataacacccataagattctccttttgaagtgtatgatcagttataaga-cccataagtggttccta
|| || || |||||||| ||||| | || ||||| ||||||||||||||||| ||||||||||||||||| || || || || || || || || ||||||| | | |||||| |||| | ||| | |||| | | || | | | |||| | | | | | ||||| | |||| | |
GTTATCATTGATATGAACATGCCAAATCAACCTTTGAGGAGGCCTATAACTGCGGATTCTGCTCTTATGAATCCGAATTCTAGAATTCTCGCTTTGAAAGgtaagata-tgtttcataatcttctcctgaatttgtgacttgtgagttgcaccttggtgttgatatgaattctgtctttggatataaaaatccattggaag------
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA11G35460.1 (Glycine max), 5'ss of exon 2
GTAATTATCGATATGAATATGCCGATGCAGCCTTTAAGGAGGCCTATAACTGCTGATTCTGCTCTTATGAACCCAAACTCGAGGATCCTTGCCTTAAAAGgtattacactgtttccttcgat-cgcattatca-cttataacacccataagattctccttttga-agtgtatgatcagttataagacccataagtggttccta
|| || || |||||||| ||||||| |||||||| ||||||||||| || || ||||| ||||||||||| || || || || |||||||| || |||||| ||| || | || || | |||| | ||| | || | | || | ||| ||| || |||| | | | ||
GTTATCATTGATATGAACATGCCGAATCAGCCTTTGAGGAGGCCTATTACCGCAGATTCCGCTCTTATGAATCCGAATTCCAGAATCCTTGCTTTGAAAGgttggctactattccgttgtattcttcttatgaacttgtgacttgtgtttgtggctagtaatgatgatgtggtattgtggataat-ctaaccaccggcatt--
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G15060.1 (Glycine max), 5'ss of exon 2
GTAATTATCGATATGAATATGCCGATGCAGCCTTTAAGGAGGCCTATAACTGCTGATTCTGCTCTTATGAACCCAAACTCGAGGATCCTTGCCTTAAAAGgtattacactgtttccttcgat-cgcattatca-cttataacacccata---agattctccttttgaagtgtatgatcagttataagacccataagtggttcc-ta------------
||||||| |||||||| ||||||||||| || | ||||| ||||||||||| ||||| || || |||||||| || |||||| ||| || | || || | | || | ||| | || | | | | | | ||| ||| || | || | | | | || || ||
------------------ATGCCGAATCAGCCTTTGAGGAGGCCTATTACGGTAGATTCCGCTCTTATGAATCCAAATTCCAGAATCCTTGCTTTGAAAGGTTGGCTACTATTCCGTTgtattcttctcatgaacttgtgactcgtgtttgtggctagtaatgatgatgtggatttgtggataatataactaccggtattttggtattgattcgaatt
upper sequence: AT3G11130.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 5'ss of exon 2
GTAATTATCGATATGAATATGCCGATGCAGCCTTTAAGGAGGCCTATAACTGCTGATTCTGCTCTTATGAACCCAAACTCGAGGATCCTTGCCTTAAAAGgtattacactgtttccttcgatcgcattatcacttataacacccataagattctccttttgaagtgtatgatcagttataagacccataagtggttccta------
||||| || |||||||||||||| ||||||||||| || ||||| || ||||| || || || || ||||| || || | || || ||||| || |||||| | | | || | | |||| | || | | ||| | | || ||||| | | | |||| ||| || ||
GTAATCATTGATATGAATATGCCAATGCAGCCTTTGAGAAGGCCGATCACTGCGGACTCGGCGCTAATGAATCCCAATACCAGAATTCTTGCATTGAAAGgtgaggga-tatggtgatcatttg-gccatcatatttattttttgattggaaatacttatta---ttaacatcagatttgat-tccatttgtgcttattagaaagaMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|19877198|gb|AU238029.1|AU238029EST: TGCTGATTCTGCTCTTATGAACCCAAACTCGAGGATCCTTGCCTTAAAAG CTCAAGTTCCAGGAACTACTCAGGATCATCTACAGATATTTAACATTGAAG
genomic: TGCTGATTCTGCTCTTATGAACCCAAACTCGAGGATCCTTGCCTTAAAAGgtattacact ... tcgtatatagCTCAAGTTCCAGGAACTACTCAGGATCATCTACAGATATTTAACATTGAAG
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTAATTATCGATATGAATATGCCGATGCAGCCTTTAAGGAGGCCTATAACTGCTGATTCTGCTCTTATGAACCCAAACTCGAGGATCCTTGCCTTAAAAGgtattacactgtttccttcgatcgcattatcacttataacacccataagattctccttttgaagtgtatgatcagttataagacccataagtggttccta
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcgatcgc